Traceback error when running tutorial data during CTF estimation step

Whenever I try to process the tutorial data, I get a traceback error during CTF estimation (please see attached). I’ve also included the metadata below.

I’ve been running the T20S comprehensive workflow, so I don’t know why I’m getting this error as the entire structure solution process should be automated.

Inspecting log files from previous runs, I noticed that cryosparc was not detecting the Nvidia drivers. I updated the Nvidia drivers (and CUDA to be safe) but I still get the same error.

Metadata Below:

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@CurrieLabCSB Welcome to the forum.
There appears to be a mismatch between the screenshot and the metadata.
Please can you post for jobs J38 and J41

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J 38

Overview

License is valid.

Launching job on lane default target owner-ThinkStation-P330-Tiny ...

Running job on master node hostname owner-ThinkStation-P330-Tiny

[CPU: 79.9 MB]   Project P1 Job J38 Started

[CPU: 79.9 MB]   Master running v3.3.2+220518, worker running v3.3.2+220518

[CPU: 80.3 MB]   Working in directory: /home/owner/Desktop/P1/J38

[CPU: 80.3 MB]   Running on lane default

[CPU: 80.3 MB]   Resources allocated: 

[CPU: 80.3 MB]     Worker:  owner-ThinkStation-P330-Tiny

[CPU: 80.3 MB]     CPU   :  [0, 1, 2, 3, 4, 5]

[CPU: 80.3 MB]     GPU   :  [0]

[CPU: 80.3 MB]     RAM   :  [0, 1]

[CPU: 80.3 MB]     SSD   :  False

[CPU: 80.3 MB]   --------------------------------------------------------------

[CPU: 80.3 MB]   Importing job module for job type patch_motion_correction_multi...

[CPU: 245.1 MB]  Job ready to run

[CPU: 245.3 MB]  ***************************************************************

[CPU: 245.7 MB]  Job will process this many movies:  20

[CPU: 246.3 MB]  parent process is 5254

[CPU: 170.9 MB]  Calling CUDA init from 5310

[CPU: 313.9 MB]  -- 0.0: processing 0 of 20: J37/imported/014176110853171183005_14sep05c_00024sq_00003hl_00002es.frames.tif
        loading /home/owner/Desktop/P1/J37/imported/014176110853171183005_14sep05c_00024sq_00003hl_00002es.frames.tif
        Loading raw movie data from J37/imported/014176110853171183005_14sep05c_00024sq_00003hl_00002es.frames.tif ...
        Done in 2.20s
        Loading gain data from J37/imported/norm-amibox05-0.mrc ...
        Done in 0.07s
        Processing ...

[CPU: 729.7 MB]  -- 0.0: processing 1 of 20: J37/imported/011284411061579350645_14sep05c_00024sq_00003hl_00005es.frames.tif
        loading /home/owner/Desktop/P1/J37/imported/011284411061579350645_14sep05c_00024sq_00003hl_00005es.frames.tif
        Loading raw movie data from J37/imported/011284411061579350645_14sep05c_00024sq_00003hl_00005es.frames.tif ...
        Done in 2.16s
        Loading gain data from J37/imported/norm-amibox05-0.mrc ...
        Done in 0.00s
        Processing ...
[CPU: 246.6 MB]  Error occurred while processing J37/imported/014176110853171183005_14sep05c_00024sq_00003hl_00002es.frames.tif
Traceback (most recent call last):
  File "/home/owner/cryosparc/cryosparc_worker/cryosparc_compute/jobs/pipeline.py", line 60, in exec
    return self.process(item)
  File "cryosparc_master/cryosparc_compute/jobs/motioncorrection/run_patch.py", line 178, in cryosparc_compute.jobs.motioncorrection.run_patch.run_patch_motion_correction_multi.motionworker.process
  File "cryosparc_master/cryosparc_compute/jobs/motioncorrection/run_patch.py", line 181, in cryosparc_compute.jobs.motioncorrection.run_patch.run_patch_motion_correction_multi.motionworker.process
  File "cryosparc_master/cryosparc_compute/jobs/motioncorrection/run_patch.py", line 183, in cryosparc_compute.jobs.motioncorrection.run_patch.run_patch_motion_correction_multi.motionworker.process
  File "cryosparc_worker/cryosparc_compute/jobs/motioncorrection/patchmotion.py", line 255, in cryosparc_compute.jobs.motioncorrection.patchmotion.unbend_motion_correction
  File "cryosparc_worker/cryosparc_compute/jobs/motioncorrection/patchmotion.py", line 598, in cryosparc_compute.jobs.motioncorrection.patchmotion.unbend_motion_correction
  File "cryosparc_worker/cryosparc_compute/engine/cuda_core.py", line 353, in cryosparc_compute.engine.cuda_core.EngineBaseThread.ensure_allocated
  File "/home/owner/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/site-packages/pycuda/gpuarray.py", line 210, in __init__
    self.gpudata = self.allocator(self.size * self.dtype.itemsize)
pycuda._driver.MemoryError: cuMemAlloc failed: out of memory

Marking J37/imported/014176110853171183005_14sep05c_00024sq_00003hl_00002es.frames.tif as incomplete and continuing...

Metadata

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J41

Overview:

License is valid.

Launching job on lane default target owner-ThinkStation-P330-Tiny …

Running job on master node hostname owner-ThinkStation-P330-Tiny

[CPU: 80.7 MB] Project P1 Job J41 Started

[CPU: 80.7 MB] Master running v3.3.2+220518, worker running v3.3.2+220518

[CPU: 81.1 MB] Working in directory: /home/owner/Desktop/P1/J41

[CPU: 81.1 MB] Running on lane default

[CPU: 81.1 MB] Resources allocated:

[CPU: 81.1 MB] Worker: owner-ThinkStation-P330-Tiny

[CPU: 81.1 MB] CPU : [0, 1]

[CPU: 81.1 MB] GPU : [0]

[CPU: 81.1 MB] RAM : [0]

[CPU: 81.1 MB] SSD : False

[CPU: 81.1 MB] --------------------------------------------------------------

[CPU: 81.1 MB] Importing job module for job type patch_ctf_estimation_multi…

[CPU: 212.2 MB] Job ready to run

[CPU: 212.2 MB] ***************************************************************

[CPU: 212.6 MB] Traceback (most recent call last):
File “cryosparc_worker/cryosparc_compute/run.py”, line 85, in cryosparc_compute.run.main
File “cryosparc_master/cryosparc_compute/jobs/ctf_estimation/run.py”, line 42, in cryosparc_compute.jobs.ctf_estimation.run.run
AttributeError: ‘NoneType’ object has no attribute ‘data’

Outputs
exposures
exposureCount: 0
exposures_incomplete
exposureCount: 0

Metadata

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The motion correction job appears to have run out of memory. It is plausible that downstream jobs depending on the motion correction’s output would fail.
If the extended workflow ran successfully on the same platform, could it be because of a smaller non-cryoSPARC workload at the time the workflow was running?
What are the model and VRAM size of the GPU?

I just have CryoSPARC installed on this computer. I’m not using any other software that requires image analysis or processing. I’ve only had the cryoSPARC web server and the terminal open when running these jobs.

Subsystem: NVIDIA Corporation GP107GL [Quadro P1000]
Flags: bus master, fast devsel, latency 0, IRQ 137
Memory at b2000000 (32-bit, non-prefetchable) [size=16M]
Memory at a0000000 (64-bit, prefetchable) [size=256M]
Memory at b0000000 (64-bit, prefetchable) [size=32M]
I/O ports at 3000 [size=128]
Expansion ROM at 000c0000 [virtual] [disabled] [size=128K]
Capabilities:
Kernel driver in use: nvidia
Kernel modules: nvidiafb, nouveau, nvidia_drm, nvidia